Package: seaview (1:4.3.3-3) [non-free]

[ Source: seaview  ]

Multiplatform interface for sequence alignment and phylogeny

SeaView reads and writes various file formats (NEXUS, MSF, CLUSTAL, FASTA, PHYLIP, MASE, Newick) of DNA and protein sequences and of phylogenetic trees. Alignments can be manually edited. It drives the programs Muscle or Clustal W for multiple sequence alignment, and also allows one to use any external alignment algorithm able to read and write FASTA-formatted files. It computes phylogenetic trees by parsimony using PHYLIP's dnapars/protpars algorithm, by distance with NJ or BioNJ algorithms on a variety of evolutionary distances, or by maximum likelihood using the program PhyML 3.0. SeaView draws phylogenetic trees on screen or PostScript files, and allows one to download sequences from EMBL/GenBank/UniProt using the Internet.

Tags: Field: Biology, Bioinformatics, Implemented in: implemented-in::c, implemented-in::c++, User Interface: X Window System, Networking: Client, Network Protocol: protocol::TODO, role::program, Scope: Utility, Interface Toolkit: FLTK, Purpose: use::TODO, use::comparing, Editing, Printing, use::viewing, works-with-format::plaintext, Works with: works-with::biological-sequence, x11::application

Other Packages Related to seaview

• dep: libc6 (>= 2.7)

  Embedded GNU C Library: Shared libraries
  also a virtual package provided by libc6-udeb

• dep: libfltk-images1.3

  Fast Light Toolkit - image loading support

• dep: libfltk1.3 (>= 1.3.0)

  Fast Light Toolkit - main shared library

• dep: libgcc1 (>= 1:4.1.1)

  GCC support library

• dep: libstdc++6 (>= 4.1.1)

  GNU Standard C++ Library v3

• dep: libx11-6

  X11 client-side library

• dep: zlib1g (>= 1:1.1.4)

  compression library - runtime

• rec: clustalw

  global multiple nucleotide or peptide sequence alignment

• rec: muscle

  Multiple alignment program of protein sequences

• rec: phyml

  Phylogenetic estimation using Maximum Likelihood

Download seaview

Download for all available architectures

Architecture	Package Size	Installed Size	Files
i386	335.2 kB	811.0 kB	[list of files]